# List of top-scoring protein chains for t06-100-30-n_notor2-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1nxmA 197 5.82e-02 b.82.1.1 86385 1svpA 161 4.53e-01 1svpA b.47.1.3 26384 2al3A 90 4.91e-01 1a0cA 438 5.80e-01 1a0cA c.1.15.3 29529 1wxxA 382 8.04e-01 1i1qA 520 8.10e-01 1qdlA d.161.1.1 61543 1uwwA 191 1.57e+00 b.18.1.23 108079 1bio 228 1.68e+00 5ptp b.47.1.2 26314 2gupA 292 1.84e+00 1h9hE 223 2.02e+00 b.47.1.2 103810 1atg 231 2.07e+00 1atg c.94.1.1 35834 2bepA 159 2.22e+00 1y7bA 542 2.31e+00 1jatA 155 2.48e+00 1u9aA d.20.1.1 62818 1l0qA 391 2.94e+00 b.1.3.1,b.69.2.3 77644,77645 1qipA 183 3.00e+00 1qipA d.32.1.1 38470 1gxrA 337 3.03e+00 b.69.4.1 70722 1wkbA 810 4.00e+00 1ppjA 446 4.26e+00 d.185.1.1,d.185.1.1 104252,104253 1axiB 236 4.32e+00 1axiB b.1.2.1,b.1.2.1 21997,21998 2mprA 421 4.36e+00 2mprA f.4.3.2 43788 1kqfA 1015 4.37e+00 b.52.2.2,c.81.1.1 72871,72872 2pia 321 4.70e+00 2pia b.43.4.2,c.25.1.2,d.15.4.2 25663,31553,37704 1tqzA 133 4.81e+00 1umwA 237 4.92e+00 d.223.1.2,d.223.1.2 99631,99632 1hnjA 317 4.95e+00 1hn9A c.95.1.2,c.95.1.2 35969,35970 1h4wA 224 5.02e+00 b.47.1.2 65622 1khiA 176 5.04e+00 b.34.5.2,b.40.4.5 77408,77409 1d7pM 159 5.30e+00 1cztA b.18.1.2 23718 1uwcA 261 5.34e+00 c.69.1.17 100101 1kyfA 247 5.56e+00 b.1.10.1,d.105.1.1 73220,73221 1um5H 217 5.91e+00 1rz2A 254 6.14e+00 b.100.1.1 105130 1nziA 159 6.44e+00 b.23.1.1,g.3.11.1 86449,86450 1iyeA 309 7.16e+00 e.17.1.1 83786 2gu3A 136 7.31e+00 1q8bA 105 7.36e+00 d.58.4.6 96201 1kw3B 292 7.84e+00 d.32.1.3,d.32.1.3 77549,77550 1musA 477 8.12e+00 c.55.3.4 79494 2a31A 223 8.21e+00 1fl2A 310 8.21e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 2gd9A 189 8.49e+00 1cjaA 342 9.07e+00 1cjaA d.144.1.3 41708 1j58A 385 9.21e+00 b.82.1.2 71531 1rypI 222 9.22e+00 d.153.1.4 41877 2aiqA 231 9.26e+00 1s83A 223 9.69e+00 b.47.1.2 98718 1gr0A 367 9.74e+00 c.2.1.3,d.81.1.3 70379,70380 1khdA 345 9.78e+00 a.46.2.1,c.27.1.1 77400,77401 1p8xA 344 1.03e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 2fh1A 344 1.04e+01 1dxrH 258 1.07e+01 6prcH b.41.1.1,f.23.10.1 25456,43433 1ppjD 241 1.07e+01 a.3.1.3,f.23.11.1 104258,104259 1dzfA 215 1.08e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 1x8qA 184 1.10e+01 4bcl 366 1.10e+01 4bcl b.75.1.1 27968 1gjjA 168 1.11e+01 a.140.1.1,a.140.1.1 83291,83292 2ghsA 326 1.13e+01 1lopA 164 1.14e+01 2cpl b.62.1.1 27510 1z2uA 150 1.15e+01 1w2wB 191 1.16e+01 1lcyA 325 1.17e+01 b.36.1.4,b.47.1.1 73834,73835 2fafA 608 1.23e+01 2fimA 276 1.24e+01 1m2tB 263 1.24e+01 b.42.2.1,b.42.2.1 84762,84763 1um0A 365 1.30e+01 d.258.1.1 107942 1olzA 663 1.31e+01 b.1.1.4,b.69.12.1,g.16.2.1 93341,93342,93343 1dpo 223 1.32e+01 5ptp b.47.1.2 25975 1xdwA 331 1.34e+01 1b63A 333 1.34e+01 1b63A d.14.1.3,d.122.1.2 37566,41107 1j4aA 333 1.36e+01 c.2.1.4,c.23.12.1 71502,71503 1q1uA 144 1.38e+01 b.42.1.1 95608 1lam 484 1.43e+01 1lam c.50.1.1,c.56.5.3 33166,33829 1l5oA 356 1.55e+01 c.39.1.1 77711 2al1A 436 1.56e+01 1s5aA 150 1.56e+01 d.17.4.10 98525 1k1eA 180 1.61e+01 c.108.1.5 67995 1szqA 483 1.63e+01 e.44.1.1 99045 1deuA 277 1.63e+01 1theB d.3.1.1 37085 2cw6A 298 1.70e+01 1vzwA 244 1.70e+01 1qhtA 775 1.71e+01 1tgoA c.55.3.5,e.8.1.1 33722,43011 1dx5I 118 1.72e+01 1dx5I g.3.11.1,g.3.11.1,g.3.11.1 44302,44303,44304 1cojA 212 1.72e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1vl2A 421 1.74e+01 c.26.2.1,d.210.1.1 108708,108709 2gnpA 266 1.76e+01 2cnqA 306 1.79e+01 1eq9A 222 1.81e+01 5ptp b.47.1.2 26068 1qx4A 274 1.83e+01 b.43.4.2,c.25.1.1 104624,104625 2be1A 339 1.83e+01 1ry9A 145 1.86e+01 d.198.1.1 98094 1gy7A 125 1.89e+01 d.17.4.2 70738 1oq1A 223 1.90e+01 b.29.1.17 93408 1wljA 189 1.91e+01 1aky 221 1.93e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1syxB 86 1.95e+01 1ri6A 343 1.96e+01 b.69.11.1 97503 1h7sA 365 1.98e+01 d.14.1.3,d.122.1.2 65705,65706 1gbg 214 2.01e+01 1axkA b.29.1.2 24171 1sqsA 242 2.05e+01 c.23.5.5 98968 1nnxA 109 2.10e+01 b.40.10.1 92013 2b18A 164 2.13e+01 1oneA 436 2.14e+01 4enl c.1.11.1,d.54.1.1 29200,38844 3nul 130 2.20e+01 3nul d.110.1.1 40891 2ab5A 269 2.20e+01 1m98A 317 2.22e+01 a.175.1.1,d.17.4.6 78866,78867 1acf 125 2.26e+01 3nul d.110.1.1 40882 1ojqA 212 2.29e+01 d.166.1.1 93146 1urrA 102 2.32e+01 d.58.10.1 107998 1f9zA 135 2.37e+01 1qipA d.32.1.1 38484 1vr3A 191 2.41e+01 1eu8A 409 2.42e+01 1eu8A c.94.1.1 59502 1cqyA 99 2.43e+01 1b9zA b.3.1.1 22527 1who 96 2.44e+01 1who b.7.3.1 23215 1q8fA 313 2.45e+01 c.70.1.1 96203 2apjA 260 2.45e+01 1e4mM 501 2.45e+01 1e70M c.1.8.4 59226 1vcdA 126 2.47e+01 1y4hA 188 2.48e+01 1cewI 108 2.48e+01 1cewI d.17.1.2 37999 1ve4A 206 2.50e+01 1kvkA 395 2.53e+01 d.14.1.5,d.58.26.3 73060,73061 1wfyA 104 2.54e+01 1r62A 160 2.55e+01 d.122.1.3 104816 2ayh 214 2.55e+01 1axkA b.29.1.2 24172 3fruA 269 2.57e+01 1agdA b.1.1.2,d.19.1.1 20657,38150 1yspA 181 2.64e+01 2al2A 436 2.66e+01 1q59A 172 2.70e+01 f.1.4.1 95881 1aohA 147 2.71e+01 1aohA b.2.2.2 22401 1z47A 355 2.71e+01 1wwrA 171 2.74e+01 1npuA 117 2.79e+01 b.1.1.1 92038 2cw9A 194 2.80e+01 1cnzA 363 2.80e+01 1cnzA c.77.1.1 35061 2f91A 237 2.82e+01 1inp 400 2.83e+01 1inp e.7.1.1 42972 1z90A 469 2.94e+01 1r77A 103 2.97e+01 1dekA 241 3.01e+01 1dekA c.37.1.1 31842 1lrzA 426 3.02e+01 a.2.7.4,d.108.1.4,d.108.1.4 78167,78168,78169 1n1tA 641 3.03e+01 b.29.1.15,b.68.1.1 79821,79822 1n62B 809 3.09e+01 d.41.1.1,d.133.1.1 80092,80093 1ntyA 311 3.09e+01 a.87.1.1,b.55.1.1 103873,103874 1ijqA 316 3.13e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1wzoA 246 3.15e+01 1hzoA 271 3.17e+01 e.3.1.1 71092 3eipA 84 3.23e+01 3eipA d.26.2.1 38434 1bf2 750 3.23e+01 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 1dgfA 497 3.24e+01 1cf9A e.5.1.1 42782 1pbyB 337 3.26e+01 b.69.2.2 94422 1i3zA 103 3.33e+01 d.93.1.1 83667 1wvqA 167 3.35e+01 1g5hA 454 3.37e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1hs6A 611 3.40e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1ts9A 102 3.41e+01 7ahlA 293 3.48e+01 7ahlA f.6.1.1 43812 1a1x 108 3.50e+01 1a1x b.63.1.1 27514 1r61A 207 3.52e+01 c.8.8.1 97138 2c4xA 260 3.57e+01 1u5uA 374 3.60e+01 1xh3A 276 3.64e+01 2ddrA 306 3.65e+01 1zsoA 164 3.72e+01 1a3aA 148 3.75e+01 1a3aA d.112.1.1 40917 2gfaA 119 3.75e+01 1ybiA 288 3.75e+01 1q0qA 406 3.80e+01 a.69.3.1,c.2.1.3,d.81.1.3 104464,104465,104466 1ym0A 238 3.81e+01 1vmhA 144 3.81e+01 1cv8 174 3.82e+01 1cv8 d.3.1.1 37089 1j99A 293 3.84e+01 c.37.1.5 71618 1c93A 265 3.84e+01 2ebn c.1.8.5 28998 1erjA 393 3.87e+01 1erjA b.69.4.1 27660 1vc3B 97 3.89e+01 2blfA 373 3.90e+01 1yw5A 177 3.91e+01 1el5A 389 3.92e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1mf7A 194 3.93e+01 c.62.1.1 84937 2culA 232 3.94e+01 1co6A 107 3.94e+01 1ycc a.3.1.1 15894 1upqA 123 3.94e+01 1exrA 148 3.95e+01 1cll a.39.1.5 17299 1ea7A 310 3.96e+01 c.41.1.1 70086 2gm6A 208 3.96e+01 2az4A 429 3.98e+01 1cruA 454 4.00e+01 1c9uA b.68.2.1 27617 1wakA 397 4.00e+01 1q2bA 434 4.03e+01 b.29.1.10 95624 1r5tA 142 4.04e+01 c.97.1.1 104812 1vjpA 394 4.08e+01 c.2.1.3,d.81.1.3 100828,100829 2fp4B 395 4.13e+01 1h8eD 482 4.13e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1r8nA 185 4.17e+01 b.42.4.1 104851 1ww9A 392 4.18e+01 1efdN 266 4.20e+01 1efdN c.92.2.1 35597 2bg9A 370 4.23e+01 1sqgA 429 4.24e+01 a.79.1.3,c.66.1.38 105912,105913 1kxqE 120 4.27e+01 b.1.1.1 73171 1rypH 205 4.29e+01 d.153.1.4 41876 2cfuA 658 4.30e+01 2eu9A 355 4.30e+01 1t0bA 252 4.33e+01 c.23.16.6 106199 1n35A 1267 4.39e+01 e.8.1.4 79935 1pk6A 133 4.41e+01 b.22.1.1 94801 1eo1A 124 4.45e+01 1eo1A c.55.5.1 33739 1wrvA 308 4.46e+01 2iwbA 246 4.48e+01 1ev2E 220 4.49e+01 1cvsC b.1.1.4,b.1.1.4 21738,21739 1zc6A 305 4.50e+01 1r1a1 287 4.56e+01 1aym1 1ihkA 174 4.59e+01 1bfg b.42.1.1 62384 1sr4A 206 4.59e+01 b.42.2.1 105948 2ffcA 353 4.61e+01 1lvmA 229 4.66e+01 b.47.1.3 78243 1gvkB 240 4.67e+01 b.47.1.2 70610 2g30A 258 4.68e+01 1x0rA 249 4.69e+01 1obdA 306 4.70e+01 d.143.1.1 86767 1a12A 413 4.73e+01 1a12A b.69.5.1 27663 1qz8A 113 4.79e+01 b.140.1.1 96619 1p4kA 295 4.81e+01 d.153.1.5 87772 1k87A 669 4.82e+01 a.176.1.1,c.1.23.2 77286,77287 2ac0A 200 4.84e+01 1vetA 124 4.85e+01 d.110.7.1 108553 1w6nA 134 4.85e+01 1vgjA 184 4.91e+01 1zjkA 403 4.93e+01 1bquA 215 4.95e+01 1bquA b.1.2.1,b.1.2.1 22066,22067 2f4wA 187 5.00e+01 1p2hA 571 5.02e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 2f5tX 233 5.06e+01 1gz8A 299 5.08e+01 d.144.1.7 83405 1u69A 163 5.14e+01 d.32.1.7 107699 1nbaA 264 5.16e+01 1nbaA c.33.1.3 31753 2giyA 191 5.16e+01 1mqoA 227 5.16e+01 d.157.1.1 103846 1kexA 155 5.17e+01 b.18.1.2 77350 1agjA 242 5.19e+01 1agjA b.47.1.1 25827 1f00I 282 5.19e+01 1f00I b.1.14.1,b.1.14.1,d.169.1.3 22368,22369,42439 2f9cA 334 5.22e+01 1qqqA 264 5.30e+01 1bkpA d.117.1.1 40931 1qhlA 227 5.34e+01 1qhlA c.37.1.12 32382 1p1mA 406 5.47e+01 b.92.1.4,c.1.9.9 87696,87697 1qmvA 197 5.47e+01 1qq2A c.47.1.10 33066 1vyoA 128 5.53e+01 1iz5A 249 5.58e+01 d.131.1.2,d.131.1.2 83834,83835 1v8bA 479 5.59e+01 1w8oA 601 5.59e+01 1xt5A 135 5.64e+01 1p5zB 263 5.64e+01 c.37.1.1 87815 1w1hA 151 5.70e+01 2fv7A 331 5.70e+01 1dypA 271 5.75e+01 1dypA b.29.1.2 24185 1vlyA 338 5.75e+01 b.44.2.1,d.250.1.1 108871,108872 1ne8A 117 5.77e+01 b.34.6.2 80424 1vqoQ 96 5.82e+01 1c4rA 182 5.86e+01 1c4rA b.29.1.4 24229 1o5zA 442 5.86e+01 c.59.1.2,c.72.2.2 92530,92531 2iwaA 266 5.89e+01 1vplA 256 6.00e+01 1w9pA 433 6.02e+01 1lj5A 379 6.09e+01 e.1.1.1 73928 1e9pA 151 6.11e+01 1mfmA b.1.8.1 22215 1bsg 266 6.11e+01 1btl e.3.1.1 42729 1zv9A 172 6.13e+01 2g39A 497 6.14e+01 1v10A 521 6.22e+01 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1df7A 159 6.23e+01 3dfr c.71.1.1 34885 1nw3A 416 6.33e+01 c.66.1.31 86288 1p32A 209 6.34e+01 1p32A d.25.1.1 38379 1vfgA 390 6.35e+01 a.173.1.1,d.218.1.4 108570,108571 1jbwA 428 6.37e+01 c.59.1.2,c.72.2.2 62860,62861 2cohA 202 6.48e+01 1jtdB 273 6.49e+01 b.69.5.2 67265 1nnhA 294 6.62e+01 d.104.1.1 92005 1vj0A 380 6.64e+01 b.35.1.2,c.2.1.1 100786,100787 1tt7A 330 6.65e+01 2ganA 190 6.69e+01 2bukA 196 6.69e+01 1chmA 401 6.69e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1stzA 338 6.70e+01 a.4.5.51,d.110.2.3 106009,106010 2gaxA 135 6.82e+01 1rqbA 539 6.85e+01 a.5.7.2,c.1.10.5 105057,105058 1w7jA 795 6.87e+01 1dp4A 435 6.95e+01 1dp4A c.93.1.1 35710 1vrmA 325 6.96e+01 1h0hB 214 6.99e+01 d.58.1.5 76437 2f0aA 98 7.04e+01 1g9gA 629 7.05e+01 a.102.1.2 83279 1c0pA 363 7.08e+01 1an9A c.4.1.2,d.16.1.3 30647,37934 1yi9A 309 7.08e+01 1zh1A 163 7.09e+01 1qj8A 148 7.12e+01 1qj8A f.4.1.1 43744 2b34A 199 7.19e+01 1lfdA 87 7.24e+01 1lfdA d.15.1.5 37622 1oa4A 222 7.24e+01 b.29.1.11 86731 2a77H 222 7.26e+01 2gjgA 248 7.33e+01 1ni4A 365 7.35e+01 c.36.1.11 85728 2bbdA 350 7.48e+01 1j7gA 144 7.55e+01 c.110.1.1 84130 1mvfA 135 7.58e+01 b.1.1.1 85141 1vqoA 240 7.61e+01 1vioA 243 7.61e+01 d.265.1.3,d.66.1.5 100762,100763 2f8lA 344 7.74e+01 1fvkA 189 7.74e+01 1fvkA c.47.1.13 90351 1z84A 351 7.79e+01 1cnv 299 7.85e+01 1cnv c.1.8.5 28989 1ivyA 452 7.87e+01 1ivyA c.69.1.5 34654 1tl2A 236 8.06e+01 1tl2A b.67.1.1 27541 1gw5S 142 8.08e+01 d.110.4.2 70633 2asbA 251 8.09e+01 1m6pA 152 8.09e+01 1m6pA b.64.1.1 27519 1wl4A 397 8.11e+01 1g87A 614 8.14e+01 a.102.1.2,b.2.2.2 83275,83276 1jd0A 263 8.15e+01 2cba b.74.1.1 62888 1wdtA 665 8.19e+01 2f96A 224 8.20e+01 1q87A 221 8.29e+01 e.47.1.1 96192 1mwpA 96 8.30e+01 1mwpA d.170.2.1 42453 1wb0A 445 8.31e+01 1r45A 204 8.32e+01 1bhe 376 8.43e+01 1bhe b.80.1.3 28030 1ekgA 127 8.44e+01 1dlxA d.82.2.1 40021 2bz6H 254 8.52e+01 1p9aG 290 8.54e+01 c.10.2.7 87990 1o13A 136 8.58e+01 c.55.5.1 80762 1lshB 319 8.68e+01 f.7.1.1 74245 2b8lA 405 8.72e+01 1xy7A 166 8.83e+01 1dq3A 454 8.85e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1lucB 324 8.88e+01 1lucA c.1.16.1 29548 2cz1A 206 8.89e+01 1ex0A 731 8.89e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1mswD 883 8.94e+01 e.8.1.3 79427 2ex0A 399 8.96e+01 1z3qA 200 8.97e+01